Phylogenetic Analysis

Phylogenetic Analysis

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CD Genomics provides Phylogenetic Analysis Service to explore and unravels the intricate evolutionary relationships among organisms. We offer comprehensive and tailored solutions to help you gain invaluable insights into the evolutionary history of your species of interest.

Overview of Phylogenetic Analysis

Phylogenetic analysis is used to study the evolutionary relationships between organisms or groups of organisms, which involves the construction of phylogenetic trees, which are branching diagrams that depict the hypothetical evolutionary history and relatedness of different species or other taxonomic units. The primary goal of phylogenetic analysis is to infer evolutionary relationships by examining shared characteristics, such as genetic sequences, morphological traits, or behavioral patterns. We can help you establish patterns of common ancestry and evolutionary divergence by comparing these characteristics across different species.

While the basic principles of phylogenetic analysis are relatively straightforward, conducting a thorough and accurate analysis can be challenging. Whether you are starting from raw sequence data or require assistance in refining your existing dataset, our team of experts will guide you through each step of the analysis process, from data preparation and alignment to tree construction and interpretation.

Workflow of Phylogenetic Analysis

Data Collection: Gather relevant data, which may include DNA or protein sequences, morphological traits, or even behavioral characteristics, depending on the available information and the research question.

Alignment: If the data involves genetic sequences, align is needed to ensure that homologous positions are properly matched across different species. This step ensures accurate comparison and analysis.

Tree Building: Various methods are employed to construct phylogenetic trees. These methods include distance-based methods (such as neighbor-joining), character-based methods (such as maximum parsimony), and probabilistic methods (such as maximum likelihood or Bayesian inference). Each method has its advantages and assumptions.

Tree Evaluation: Once a tree is constructed, statistical measures are used to evaluate its reliability and robustness. Bootstrap resampling or posterior probability values are often calculated to assess the confidence level of the inferred relationships.

Interpretation: The final step involves interpreting the phylogenetic tree to understand the evolutionary relationships between the species or groups of interest. The tree can reveal common ancestors, branching patterns, and the relative recency of divergence events.

Phylogenetic and molecular evolutionary analysis workflowPhylogenetic and molecular evolutionary analysis workflow (Shakya et al., 2020)

Our phylogenetic analysis can have applications in a variety of fields, including evolutionary biology, systematics, comparative genomics, and conservation biology. It can help you understand the evolutionary history of an organism, trace the origin of a disease, determine genetic relationships between different populations or species, and make predictions about the evolution of a trait or organism. In addition, phylogenetic analysis is essential for classification and taxonomy, providing a framework for organisms to be organized and named according to their evolutionary relationships.

If you have any questions or needs you can contact us directly.

How It Works

Initial Consultation

Initial Consultation

  • Meet with technical experts to discuss your specific requirements, objectives, and research questions.
  • Gather information about the organisms or entities you want to analyze, the available data, and any specific analysis methods or software preferences you may have.
  • Understand your project goals and allow us to tailor our approach to meet your needs.

Project Confirmation

Project Confirmation

  • If you don't have data yet, we can also provide omics sequencing services.
  • Provide you with a detailed proposal that outlines the scope of work, timeline, cost, and any other relevant terms and conditions.

Data Analysis

Data Analysis

  • Perform phylogenetic analysis to infer evolutionary relationships.
  • Various techniques such as distance-based methods, maximum likelihood, Bayesian inference, or other advanced algorithms.
  • Handle the computational aspects of the analysis, ensuring accurate and reliable results.
  • Perform downstream analysis.


Results Delivery

  • Provide the client with a detailed report summarizing the analysis results.
  • Include reconstructed phylogenetic trees, statistical support for branching patterns, divergence times (if applicable), and any other relevant analyses conducted.
  • Provide recommendations for future research directions.


  1. Shakya, Migun, et al. "Standardized phylogenetic and molecular evolutionary analysis applied to species across the microbial tree of life." Scientific reports 10.1 (2020): 1-15.
* For Research Use Only. Not for use in diagnostic procedures.
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